PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Sobic.001G158500.1.p | ||||||||
Common Name | Sb01g013820, SORBIDRAFT_01g013820 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
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Family | LSD | ||||||||
Protein Properties | Length: 176aa MW: 18336.3 Da PI: 8.4339 | ||||||||
Description | LSD family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | zf-LSD1 | 37.4 | 4.1e-12 | 7 | 31 | 1 | 25 |
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+ Crt+L YPrGA+sV+Ca+C+++ Sobic.001G158500.1.p 7 CHACRTVLLYPRGASSVCCAVCQAI 31 ***********************97 PP | |||||||
2 | zf-LSD1 | 39.9 | 6.7e-13 | 46 | 70 | 1 | 25 |
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+r A VRC++C+tV Sobic.001G158500.1.p 46 CGGCRTLLMYTRSADTVRCSCCNTV 70 ************************9 PP | |||||||
3 | zf-LSD1 | 49.7 | 5.8e-16 | 84 | 108 | 1 | 25 |
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Crt+L+YP+GApsV+Ca+C+ V Sobic.001G158500.1.p 84 CGQCRTTLMYPYGAPSVKCAICNYV 108 ***********************87 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
TIGRFAMs | TIGR01053 | 3.0E-13 | 4 | 34 | IPR005735 | Zinc finger, LSD1-type |
Pfam | PF06943 | 4.0E-10 | 7 | 31 | IPR005735 | Zinc finger, LSD1-type |
TIGRFAMs | TIGR01053 | 2.3E-15 | 43 | 73 | IPR005735 | Zinc finger, LSD1-type |
Pfam | PF06943 | 7.9E-11 | 46 | 70 | IPR005735 | Zinc finger, LSD1-type |
TIGRFAMs | TIGR01053 | 1.3E-12 | 81 | 109 | IPR005735 | Zinc finger, LSD1-type |
Pfam | PF06943 | 1.3E-14 | 84 | 108 | IPR005735 | Zinc finger, LSD1-type |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0000303 | Biological Process | response to superoxide | ||||
GO:0001666 | Biological Process | response to hypoxia | ||||
GO:0002240 | Biological Process | response to molecule of oomycetes origin | ||||
GO:0009626 | Biological Process | plant-type hypersensitive response | ||||
GO:0009862 | Biological Process | systemic acquired resistance, salicylic acid mediated signaling pathway | ||||
GO:0010104 | Biological Process | regulation of ethylene-activated signaling pathway | ||||
GO:0010310 | Biological Process | regulation of hydrogen peroxide metabolic process | ||||
GO:0010602 | Biological Process | regulation of 1-aminocyclopropane-1-carboxylate metabolic process | ||||
GO:0010618 | Biological Process | aerenchyma formation | ||||
GO:0043069 | Biological Process | negative regulation of programmed cell death |
Sequence ? help Back to Top |
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Protein Sequence Length: 176 aa Download sequence Send to blast |
MQSQIVCHAC RTVLLYPRGA SSVCCAVCQA ITTVPPPGLE MAQLICGGCR TLLMYTRSAD 60 TVRCSCCNTV NLVRPVNNIA HVNCGQCRTT LMYPYGAPSV KCAICNYVTT TGVNTVAPTP 120 SARPTSNESS YIGSSTSAPK SQPQNVTVVV ENPMTVDDKG KLVSSVVVGV TAGKV* |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Sbi.1819 | 0.0 | ovary| pollen |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Putative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Sobic.001G158500.1.p |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | EU976486 | 0.0 | EU976486.1 Zea mays clone 895962 zinc finger protein LSD2 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002464188.1 | 1e-122 | protein LOL3 | ||||
Swissprot | Q6ASS2 | 6e-97 | LOL3_ORYSJ; Protein LOL3 | ||||
TrEMBL | C5WR97 | 1e-121 | C5WR97_SORBI; Uncharacterized protein | ||||
STRING | Sb01g013820.1 | 1e-122 | (Sorghum bicolor) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP1347 | 38 | 124 | Representative plant | OGRP1146 | 17 | 53 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G32540.1 | 7e-54 | lsd one like 1 |
Link Out ? help Back to Top | |
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Phytozome | Sobic.001G158500.1.p |
Entrez Gene | 8057253 |
Publications ? help Back to Top | |||
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